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MD simulations

Topics

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[1] Gromacs missing ' P ' atom

[2] generate DNA pdb file for Gromacs

[3] DNA step parameters

[4] Superimpose representative cluster of a RNA strand after simulation

[5] Unnatural base pair helical parameters

[6] Failed Downloading MD Ruby Scripts of 3DNA

[7] Filter frayed ends or broken H bonds

[8] do_x3dna as a plugin for VMD and update in dnaMD

[9] Analysis of helical parameter of DNA with unnatural

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Created and maintained by Dr. Xiang-Jun Lu [律祥俊] (xiangjun@x3dna.org)
The Bussemaker Laboratory at the Department of Biological Sciences, Columbia University.